Gene detail

Detailed information of CAB3994683.1 in Paramuricea clavata

Genomic Location: not available for this species
NR annotation: CAB3994683.1, ATP-dependent DNA helicase PIF1, partial [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families

Sequence

No sequence record for CAB3994683.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A6ZM04	ATP-dependent DNA helicase PIF1 OS=Saccharomyces cerevisiae (strain YJM789) OX=307796 GN=PIF1 PE=3 SV=1
P07271	ATP-dependent DNA helicase PIF1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=PIF1 PE=1 SV=2
Q5AXT5	ATP-dependent DNA helicase PIF1 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=pif1 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000098 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14214 all species →	Helitron_like_N	Helitron helicase-like domain at N-terminus	Family	Interproscan
PF20209 all species →	DUF6570	Domain of unknown function (DUF6570)	Domain	Interproscan
PF21107 all species →	STPRs	STPRs (score and three amino acid peptide repeats)	Repeat	Interproscan
PF05970 all species →	PIF1	PIF1-like helicase	Family	Interproscan
PF14752 all species →	RBP_receptor	Retinol binding protein receptor	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025476 all species →	Domain	Helitron helicase-like domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR046700 all species →	Domain	Domain of unknown function DUF6570	Interproscan
IPR048998 all species →	Domain	STPR domain	Interproscan
IPR010285 all species →	Family	DNA helicase Pif1-like	Interproscan
IPR026612 all species →	Family	Receptor for retinol uptake STRA6-like	Interproscan
IPR051055 all species →	Family	PIF1 DNA helicase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47642 all species →	ATP-DEPENDENT DNA HELICASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000723 all species →	Biological Process	telomere maintenance	Interproscan
GO:0003678 all species →	Molecular Function	DNA helicase activity	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0034632 all species →	Molecular Function	retinol transmembrane transporter activity	Interproscan
GO:0038023 all species →	Molecular Function	signaling receptor activity	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

No KEGG orthology assignment for CAB3994683.1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of CAB3994683.1 across 21 RNA-seq samples of Paramuricea clavata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

21Samples

13TPM > 0

4Conditions

8.7Max TPM

1.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
apical branchlet · Control at T25	6	5	2.22	3.50
apical branchlet · Temperature treatment at T0	6	5	2.36	6.28
apical branchlet · Temperature treatment at T25	5	1	0.13	0.64
apical branchlet · Control at T0	4	2	3.09	8.65

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR19977439	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	3.50
SRR19977441	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.73
SRR19977455	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.52
SRR19977444	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.36
SRR19977440	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	2.20
SRR19977433	apical branchlet · Control at T25	apical branchlet	not recorded	Control at T25	SRP384900	0.00
SRR19977427	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	6.28
SRR19977428	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	4.53
SRR19977438	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	1.76
SRR19977437	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.85
SRR19977436	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.77
SRR19977426	apical branchlet · Temperature treatment at T0	apical branchlet	not recorded	Temperature treatment at T0	SRP384900	0.00
SRR19977435	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.64
SRR19977425	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977432	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977434	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977463	apical branchlet · Temperature treatment at T25	apical branchlet	not recorded	Temperature treatment at T25	SRP384900	0.00
SRR19977445	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	8.65
SRR19977443	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	3.72
SRR19977442	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00
SRR19977446	apical branchlet · Control at T0	apical branchlet	not recorded	Control at T0	SRP384900	0.00

Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM, StringTie quantification over 21 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.